User: raf4

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raf420
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r***@cumc.columbia.edu

Posts by raf4

<prev • 40 results • page 1 of 4 • next >
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Application of RUV to a small Nanostring dataset
... Subject: Application of RUV to a small Nanostring dataset Dear Forum, I will soon be analyzing a small NanoString dataset of 1. 54 experimental genes, 2 housekeeping genes and the standard positive and negative controls. The experimental genes were chosen because they are likely to be differenti ...
nanostring ruv ruv-iii written 3 months ago by raf420
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Comment: C: error message with BiocManager::install on Mac console that's not on mac command
... Martin, I followed your instructions above. I had to compile one remaining program from source and then BiocManager::install worked from the GUI. Thank you for your help and patience. I will observe formatting guidelines more carefully in the future. Best wishes, Rich ...
written 4 months ago by raf420
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Comment: C: error message with BiocManager::install on Mac console that's not on mac command
... Martin, Thanks. Here is the last line I got in the RGUI and my attempt to remove the package: > remove.packages("repos_http%3A%2F%2Fwatson.nci.nih.gov%2Fcran_mirror%2Fsrc%2Fcontrib.rds") Removing package from ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ (as ‘lib’ ...
written 4 months ago by raf420 • updated 4 months ago by Martin Morgan ♦♦ 24k
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Comment: C: error message with BiocManager::install on Mac console that's not on mac command
... Also, I had tried the following Command line > BiocManager::valid() [1] TRUE R Gui > BiocManager::valid() Error in readRDS(dest) : unknown input format ...
written 4 months ago by raf420 • updated 4 months ago by Martin Morgan ♦♦ 24k
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Comment: C: error message with BiocManager::install on Mac console that's not on mac command
... Dear Martin and Steve and List, I installed xcode and I know can install everything in the command line but not in the RGUI. Here is the command line: > BiocManager::install("rgl") Bioconductor version 3.9 (BiocManager 1.30.4), R 3.6.0 (2019-04-26) Installing package(s) 'rgl' tr ...
written 4 months ago by raf420 • updated 4 months ago by Martin Morgan ♦♦ 24k
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Comment: C: error message with BiocManager::install on Mac console that's not on mac command
... Steve and Martin, Thank you for your help. > ls() character(0) in both the Gui and the command line > .libPaths() [1] "/Library/Frameworks/R.framework/Versions/3.6/Resources/library" ib both the GUI and the command line. I looked into the missing xcrun program noted above ...
written 4 months ago by raf420 • updated 4 months ago by Martin Morgan ♦♦ 24k
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Comment: C: error message with BiocManager::install on Mac console that's not on mac command
... Martin, In the RGUI I got > BiocManager::valid() Error in res0[, "Package"] : subscript out of bounds On the command line I got: Bioconductor version '3.9' * 2 packages out-of-date * 0 packages too new create a valid installation with Bi ...
written 4 months ago by raf420 • updated 4 months ago by Martin Morgan ♦♦ 24k
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Comment: C: error message with BiocManager::install on Mac console that's not on mac command
... Steve, Sorry. I meanto to sat, "the RGUI". Thanks and best wishes, Rich ...
written 4 months ago by raf420
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error message with BiocManager::install on Mac console that's not on mac command line
... Dear All, I am using Bioconductor 3.9 with R 3.6.0 on Mac OS 10.14.4 When I try to install a program on the Mac Console I get > BiocManager::install("org.Mm.eg.db") Bioconductor version 3.9 (BiocManager 1.30.4), R 3.6.0 (2019-04-26) Installing package(s) 'org.Mm.eg.db' Error in ...
mac biocmanager written 4 months ago by raf420 • updated 4 months ago by Martin Morgan ♦♦ 24k
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Comment: C: Use of pseudoalignment estimated counts as input to edgeR and Limma-Voom
... Dear Ryan, Thank you for your reply, Best wishes, Rich ...
written 9 months ago by raf420

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